☰ Navigation Tabs
Interaction between Vitamin D receptor (VDR) and a ligand having a dienone group
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 MOPS-Na, Na-Formate, PEG 4000, Ethyleneglycol
Crystal Properties Matthews coefficient Solvent content 2.11 41.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 153.67 α = 90 b = 42.4 β = 95.96 c = 41.85 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 210 2014-05-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.00 Photon Factory AR-NW12A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.4 41.62 88.7 12 3.4 9413
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.49
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 2.4 41.62 8948 465 87.87 0.20602 0.20491 0.212 0.22751 0.225 RANDOM 38.017
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -4.24 -0.94 5.39 -0.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.276 r_dihedral_angle_4_deg 19.147 r_dihedral_angle_3_deg 17.466 r_long_range_B_refined 5.523 r_long_range_B_other 5.515 r_dihedral_angle_1_deg 4.712 r_scangle_other 3.441 r_mcangle_it 2.852 r_mcangle_other 2.85 r_scbond_it 2.185
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.276 r_dihedral_angle_4_deg 19.147 r_dihedral_angle_3_deg 17.466 r_long_range_B_refined 5.523 r_long_range_B_other 5.515 r_dihedral_angle_1_deg 4.712 r_scangle_other 3.441 r_mcangle_it 2.852 r_mcangle_other 2.85 r_scbond_it 2.185 r_scbond_other 2.184 r_mcbond_it 1.824 r_mcbond_other 1.821 r_angle_refined_deg 1.459 r_angle_other_deg 1.097 r_chiral_restr 0.086 r_bond_refined_d 0.015 r_gen_planes_refined 0.009 r_gen_planes_other 0.007 r_bond_other_d 0.006 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1996 Nucleic Acid Atoms Solvent Atoms 67 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling REFMAC phasing